>>> netcdf: Building community/netcdf 4.9.2-r3 (using abuild 3.13.0-r5) started Wed, 04 Sep 2024 09:41:42 +0000 >>> netcdf: Checking sanity of /home/buildozer/aports/community/netcdf/APKBUILD... >>> netcdf: Analyzing dependencies... >>> netcdf: Installing for build: build-base bash bzip2-dev cmake curl-dev hdf5-dev libaec-dev libxml2-dev m4 samurai (1/39) Installing bash (5.2.32-r0) Executing bash-5.2.32-r0.post-install (2/39) Installing libbz2 (1.0.8-r6) (3/39) Installing bzip2-dev (1.0.8-r6) (4/39) Installing xz-libs (5.6.2-r0) (5/39) Installing libarchive (3.7.4-r0) (6/39) Installing rhash-libs (1.4.4-r0) (7/39) Installing libuv (1.48.0-r0) (8/39) Installing cmake (3.30.3-r0) (9/39) Installing brotli (1.1.0-r2) (10/39) Installing brotli-dev (1.1.0-r2) (11/39) Installing c-ares-dev (1.33.1-r0) (12/39) Installing libidn2-dev (2.3.7-r0) (13/39) Installing libpsl-utils (0.21.5-r2) (14/39) Installing libpsl-dev (0.21.5-r2) (15/39) Installing nghttp2-dev (1.62.1-r0) (16/39) Installing openssl-dev (3.3.2-r0) (17/39) Installing zlib-dev (1.3.1-r1) (18/39) Installing zstd (1.5.6-r1) (19/39) Installing zstd-dev (1.5.6-r1) (20/39) Installing curl-dev (8.9.1-r1) (21/39) Installing libsz (1.1.3-r0) (22/39) Installing hdf5 (1.14.4.2-r0) (23/39) Installing hdf5-cpp (1.14.4.2-r0) (24/39) Installing libgfortran (14.2.0-r2) (25/39) Installing hdf5-fortran (1.14.4.2-r0) (26/39) Installing hdf5-hl (1.14.4.2-r0) (27/39) Installing hdf5-hl-cpp (1.14.4.2-r0) (28/39) Installing hdf5-hl-fortran (1.14.4.2-r0) (29/39) Installing hdf5-dev (1.14.4.2-r0) (30/39) Installing libaec (1.1.3-r0) (31/39) Installing libaec-dev (1.1.3-r0) (32/39) Installing xz (5.6.2-r0) (33/39) Installing xz-dev (5.6.2-r0) (34/39) Installing libxml2 (2.12.8-r0) (35/39) Installing libxml2-utils (2.12.8-r0) (36/39) Installing libxml2-dev (2.12.8-r0) (37/39) Installing m4 (1.4.19-r3) (38/39) Installing samurai (1.2-r5) (39/39) Installing .makedepends-netcdf (20240904.094152) Executing busybox-1.36.1-r31.trigger OK: 328 MiB in 140 packages >>> netcdf: Cleaning up srcdir >>> netcdf: Cleaning up pkgdir >>> netcdf: Cleaning up tmpdir >>> netcdf: Fetching https://distfiles.alpinelinux.org/distfiles/edge/netcdf-4.9.2.tar.gz >>> netcdf: Fetching https://distfiles.alpinelinux.org/distfiles/edge/netcdf-4.9.2.tar.gz >>> netcdf: Checking sha512sums... netcdf-4.9.2.tar.gz: OK fix-test-on-big-endian.patch: OK >>> netcdf: Unpacking /var/cache/distfiles/netcdf-4.9.2.tar.gz... >>> netcdf: fix-test-on-big-endian.patch patching file ncdump/tst_special_atts.c -- The C compiler identification is GNU 14.2.0 -- The CXX compiler identification is GNU 14.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/gcc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/g++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done CMake Warning (dev) at CMakeLists.txt:54 (exec_program): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): CMakeLists.txt:56 (getuname) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at CMakeLists.txt:54 (exec_program): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): CMakeLists.txt:57 (getuname) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at CMakeLists.txt:54 (exec_program): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): CMakeLists.txt:58 (getuname) This warning is for project developers. Use -Wno-dev to suppress it. -- Performing Test LIBTOOL_HAS_NO_UNDEFINED -- Performing Test LIBTOOL_HAS_NO_UNDEFINED - Success -- Performing Test CC_HAS_WCONVERSION -- Performing Test CC_HAS_WCONVERSION - Success -- Performing Test CC_HAS_SHORTEN_64_32 -- Performing Test CC_HAS_SHORTEN_64_32 - Failed -- Found HDF5: /usr/lib/libhdf5.so (found version "1.14.4") found components: C HL -- Using HDF5 include dir: /usr/include -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Performing Test HAVE_HDF5_ZLIB -- Performing Test HAVE_HDF5_ZLIB - Success -- Found ZLIB: /lib/libz.so (found version "1.3.1") -- HDF5 has zlib. -- Performing Test USE_HDF5_SZIP -- Performing Test USE_HDF5_SZIP - Success -- HDF5_UTF8_PATHS (HDF5 version 1.10.6+): ON -- Looking for H5Pget_fapl_mpio in /usr/lib/libhdf5.so -- Looking for H5Pget_fapl_mpio in /usr/lib/libhdf5.so - not found -- Looking for H5Pset_all_coll_metadata_ops in /usr/lib/libhdf5.so -- Looking for H5Pset_all_coll_metadata_ops in /usr/lib/libhdf5.so - not found -- Looking for H5Dread_chunk in /usr/lib/libhdf5.so -- Looking for H5Dread_chunk in /usr/lib/libhdf5.so - found -- Looking for H5Pset_fapl_ros3 in /usr/lib/libhdf5.so -- Looking for H5Pset_fapl_ros3 in /usr/lib/libhdf5.so - not found -- Found CURL: /usr/lib/libcurl.so (found version "8.9.1") -- Performing Test HAVE_LIBCURL_766 -- Performing Test HAVE_LIBCURL_766 - Success -- Enabling DAP4 -- Found Math library: /usr/lib/libm.a -- Found Szip: headers at /usr/include, libraries at /usr/lib -- library is /usr/lib/libsz.so -- Found Bz2: headers at /usr/include, libraries at /usr/lib -- library is /usr/lib/libbz2.so -- Found Zstd: headers at /usr/include, libraries at /usr/lib -- library is /usr/lib/libzstd.so >>> Standard Filter: szip >>> Standard Filter: zstd >>> Standard Filter: bz2 -- Found LibXml2: /usr/lib/libxml2.so (found version "2.12.8") CMake Warning (dev) at CMakeLists.txt:1388 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. This warning is for project developers. Use -Wno-dev to suppress it. -- Enabling use of fill value when NC_ERANGE -- Enabling a more relaxed check for NC_EINVALCOORDS -- Looking for math.h -- Looking for math.h - found -- Looking for unistd.h -- Looking for unistd.h - found -- Looking for alloca.h -- Looking for alloca.h - found -- Looking for malloc.h -- Looking for malloc.h - found -- Looking for fcntl.h -- Looking for fcntl.h - found -- Looking for getopt.h -- Looking for getopt.h - found -- Looking for locale.h -- Looking for locale.h - found -- Looking for stdint.h -- Looking for stdint.h - found -- Looking for stdio.h -- Looking for stdio.h - found -- Looking for stdlib.h -- Looking for stdlib.h - found -- Looking for stdarg.h -- Looking for stdarg.h - found -- Looking for strings.h -- Looking for strings.h - found -- Looking for signal.h -- Looking for signal.h - found -- Looking for sys/param.h -- Looking for sys/param.h - found -- Looking for sys/stat.h -- Looking for sys/stat.h - found -- Looking for sys/time.h -- Looking for sys/time.h - found -- Looking for sys/types.h -- Looking for sys/types.h - found -- Looking for sys/mman.h -- Looking for sys/mman.h - found -- Looking for sys/resource.h -- Looking for sys/resource.h - found -- Looking for inttypes.h -- Looking for inttypes.h - found -- Looking for pstdint.h -- Looking for pstdint.h - not found -- Looking for endian.h -- Looking for endian.h - found -- Looking for BaseTsd.h -- Looking for BaseTsd.h - not found -- Looking for stddef.h -- Looking for stddef.h - found -- Looking for string.h -- Looking for string.h - found -- Looking for winsock2.h -- Looking for winsock2.h - not found -- Looking for ftw.h -- Looking for ftw.h - found -- Looking for libgen.h -- Looking for libgen.h - found -- Looking for execinfo.h -- Looking for execinfo.h - not found -- Looking for dirent.h -- Looking for dirent.h - found -- Looking for time.h -- Looking for time.h - found -- Looking for dlfcn.h -- Looking for dlfcn.h - found -- Looking for isfinite -- Looking for isfinite - found -- Looking for isnan -- Looking for isnan - found -- Looking for isinf -- Looking for isinf - found -- Looking for st_blksize -- Looking for st_blksize - not found -- Looking for alloca -- Looking for alloca - found -- Looking for snprintf -- Looking for snprintf - found -- Check size of char -- Check size of char - done -- Check size of double -- Check size of double - done -- Check size of float -- Check size of float - done -- Check size of int -- Check size of int - done -- Check size of uint -- Check size of uint - done -- Check size of schar -- Check size of schar - failed -- Check size of long -- Check size of long - done -- Check size of long long -- Check size of long long - done -- Check size of unsigned long long -- Check size of unsigned long long - done -- Check size of off_t -- Check size of off_t - done -- Check size of off64_t -- Check size of off64_t - done -- Check size of short -- Check size of short - done -- Check size of ushort -- Check size of ushort - done -- Check size of _Bool -- Check size of _Bool - done -- Check size of size_t -- Check size of size_t - done -- Check size of ssize_t -- Check size of ssize_t - done -- Check size of ptrdiff_t -- Check size of ptrdiff_t - done -- Check size of uintptr_t -- Check size of uintptr_t - done -- Check size of __int64 -- Check size of __int64 - failed -- Check size of int64_t -- Check size of int64_t - done -- Check size of uint64 -- Check size of uint64 - failed -- Check size of unsigned char -- Check size of unsigned char - done -- Check size of unsigned short int -- Check size of unsigned short int - done -- Check size of unsigned int -- Check size of unsigned int - done -- Check size of long long -- Check size of long long - done -- Check size of unsigned long long -- Check size of unsigned long long - done -- Check size of uint64_t -- Check size of uint64_t - done -- Looking for fsync -- Looking for fsync - found -- Looking for strlcat -- Looking for strlcat - found -- Looking for strdup -- Looking for strdup - found -- Looking for strndup -- Looking for strndup - found -- Looking for strtoll -- Looking for strtoll - found -- Looking for strcasecmp -- Looking for strcasecmp - found -- Looking for strtoull -- Looking for strtoull - found -- Looking for mkstemp -- Looking for mkstemp - found -- Looking for mktemp -- Looking for mktemp - found -- Looking for random -- Looking for random - found -- Looking for gettimeofday -- Looking for gettimeofday - found -- Looking for MPI_Comm_f2c -- Looking for MPI_Comm_f2c - not found -- Looking for MPI_Info_f2c -- Looking for MPI_Info_f2c - not found -- Looking for memmove -- Looking for memmove - found -- Looking for getpagesize -- Looking for getpagesize - found -- Looking for sysconf -- Looking for sysconf - found -- Looking for getrlimit -- Looking for getrlimit - found -- Looking for _filelengthi64 -- Looking for _filelengthi64 - not found -- Looking for mmap -- Looking for mmap - found -- Looking for mremap -- Looking for mremap - found -- Looking for fileno -- Looking for fileno - found -- Looking for clock_gettime -- Looking for clock_gettime - found -- Looking for struct timespec -- Looking for struct timespec - not found -- Looking for atexit -- Looking for atexit - found -- Performing Test HAVE_MAPANON -- Performing Test HAVE_MAPANON - Success -- Found m4: /usr/bin/m4 -- Found bash: /bin/bash -- CMAKE_SOURCE_DIR=/home/buildozer/aports/community/netcdf/src/netcdf-c-4.9.2 -- CMAKE_BINARY_DIR=/home/buildozer/aports/community/netcdf/src/netcdf-c-4.9.2/build -- CMAKE_CURRENT_SOURCE_DIR=/home/buildozer/aports/community/netcdf/src/netcdf-c-4.9.2/nc_test -- CMAKE_CURRENT_BINARY_DIR=/home/buildozer/aports/community/netcdf/src/netcdf-c-4.9.2/build/nc_test Configuration Summary: -- Building Shared Libraries: ON -- Building netCDF-4: ON -- Building DAP2 Support: ON -- Building DAP4 Support: ON -- Building Byte-range Support: ON -- Building Utilities: ON Tests Enabled: ON -- DAP Remote Tests: ON -- Extra Tests: ON -- Coverage Tests: OFF -- Parallel Tests: OFF -- Large File Tests: ON -- Extreme Numbers: ON -- Unit Tests: ON Compiler: -- Build Type: NONE -- CMAKE_C_COMPILER: /usr/bin/gcc -- CMAKE_C_FLAGS: -Os -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -- Linking against: /usr/lib/libhdf5_hl.so;/usr/lib/libhdf5.so;/usr/lib/libm.a;/lib/libz.so;/usr/lib/libzstd.so;/usr/lib/libbz2.so;/usr/lib/libcurl.so;/usr/lib/libxml2.so -- # NetCDF C Configuration Summary ============================== # General ------- NetCDF Version: 4.9.2 Dispatch Version: 5 Configured On: Sat May 4 12:27:50 UTC 2024 Host System: loongarch64-Linux-6.6.47-0-lts Build Directory: /home/buildozer/aports/community/netcdf/src/netcdf-c-4.9.2/build Install Prefix: /usr Plugin Install Prefix: N.A. # Compiling Options ----------------- C Compiler: /usr/bin/gcc CFLAGS: -Os -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE64_SOURCE 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[89/777] Building C object oc2/CMakeFiles/oc2.dir/ochttp.c.o [90/777] Building C object oc2/CMakeFiles/oc2.dir/ocnode.c.o [91/777] Building C object oc2/CMakeFiles/oc2.dir/ocinternal.c.o [92/777] Building C object oc2/CMakeFiles/oc2.dir/ocdump.c.o [93/777] Building C object oc2/CMakeFiles/oc2.dir/ocdebug.c.o [94/777] Building C object oc2/CMakeFiles/oc2.dir/ocdata.c.o [95/777] Building C object oc2/CMakeFiles/oc2.dir/occurlfunctions.c.o [96/777] Building C object oc2/CMakeFiles/oc2.dir/occompile.c.o [97/777] Building C object oc2/CMakeFiles/oc2.dir/dapy.c.o [98/777] Building C object oc2/CMakeFiles/oc2.dir/dapparse.c.o [99/777] Building C object oc2/CMakeFiles/oc2.dir/daplex.c.o [100/777] Building C object oc2/CMakeFiles/oc2.dir/oc.c.o [101/777] Building C object libhdf5/CMakeFiles/netcdfhdf5.dir/H5FDhttp.c.o [102/777] Building C object libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5debug.c.o [103/777] Building C object libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5set_format_compatibility.c.o [104/777] Building C object libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5filter.c.o [105/777] Building C object libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5dispatch.c.o [106/777] Building C object libhdf5/CMakeFiles/netcdfhdf5.dir/nc4memcb.c.o [107/777] Building C object libhdf5/CMakeFiles/netcdfhdf5.dir/nc4mem.c.o [108/777] Building C object libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5var.c.o [109/777] Building C object libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5open.c.o [110/777] Building C object libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5create.c.o [111/777] Building C object libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5internal.c.o [112/777] Building C object libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5type.c.o [113/777] Building C object libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5grp.c.o [114/777] Building C object libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5dim.c.o [115/777] Building C object libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5attr.c.o [116/777] Building C object libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5file.c.o [117/777] Building C object libhdf5/CMakeFiles/netcdfhdf5.dir/nc4info.c.o [118/777] Building C object libhdf5/CMakeFiles/netcdfhdf5.dir/nc4hdf.c.o [119/777] Building C object libsrc4/CMakeFiles/netcdf4.dir/nc4cache.c.o [120/777] Building C object libsrc4/CMakeFiles/netcdf4.dir/ncindex.c.o [121/777] Building C object libsrc4/CMakeFiles/netcdf4.dir/ncfunc.c.o [122/777] Building C object libsrc4/CMakeFiles/netcdf4.dir/nc4var.c.o [123/777] Building C object libsrc4/CMakeFiles/netcdf4.dir/nc4type.c.o [124/777] Building C object libsrc4/CMakeFiles/netcdf4.dir/nc4internal.c.o [125/777] Building C object libsrc4/CMakeFiles/netcdf4.dir/nc4grp.c.o ninja: job failed: /usr/bin/gcc -DCURL_STATICLIB=1 -DENABLE_SET_LOG_LEVEL -DH5_BUILT_AS_DYNAMIC_LIB -DHAVE_CONFIG_H -DRELAX_COORD_BOUND -I/home/buildozer/aports/community/netcdf/src/netcdf-c-4.9.2/build/include -I/home/buildozer/aports/community/netcdf/src/netcdf-c-4.9.2/include -I/home/buildozer/aports/community/netcdf/src/netcdf-c-4.9.2/oc2 -I/home/buildozer/aports/community/netcdf/src/netcdf-c-4.9.2/libsrc -I/usr/include/libxml2 -I/home/buildozer/aports/community/netcdf/src/netcdf-c-4.9.2/build -Os -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -MD -MT libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5open.c.o -MF libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5open.c.o.d -o libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5open.c.o -c /home/buildozer/aports/community/netcdf/src/netcdf-c-4.9.2/libhdf5/hdf5open.c /home/buildozer/aports/community/netcdf/src/netcdf-c-4.9.2/libhdf5/hdf5open.c: In function 'rec_read_metadata': /home/buildozer/aports/community/netcdf/src/netcdf-c-4.9.2/libhdf5/hdf5open.c:2902:20: error: passing argument 5 of 'H5Literate1' from incompatible pointer type [-Wincompatible-pointer-types] 2902 | read_hdf5_obj, (void *)&udata) < 0) | ^~~~~~~~~~~~~ | | | int (*)(hid_t, const char *, const H5L_info2_t *, void *) {aka int (*)(long int, const char *, const H5L_info2_t *, void *)} In file included from /usr/include/H5Gpublic.h:26, from /usr/include/hdf5.h:29, from /home/buildozer/aports/community/netcdf/src/netcdf-c-4.9.2/include/hdf5internal.h:15, from /home/buildozer/aports/community/netcdf/src/netcdf-c-4.9.2/libhdf5/hdf5open.c:13: /usr/include/H5Lpublic.h:1693:42: note: expected 'H5L_iterate1_t' {aka 'int (*)(long int, const char *, const H5L_info1_t *, void *)'} but argument is of type 'int (*)(hid_t, const char *, const H5L_info2_t *, void *)' {aka 'int (*)(long int, const char *, const H5L_info2_t *, void *)'} 1693 | H5L_iterate1_t op, void *op_data); | ~~~~~~~~~~~~~~~^~ ninja: subcommand failed >>> ERROR: netcdf: build failed >>> netcdf: Uninstalling dependencies... (1/39) Purging .makedepends-netcdf (20240904.094152) (2/39) Purging bash (5.2.32-r0) Executing bash-5.2.32-r0.pre-deinstall (3/39) Purging bzip2-dev (1.0.8-r6) (4/39) Purging cmake (3.30.3-r0) (5/39) Purging curl-dev (8.9.1-r1) (6/39) Purging hdf5-dev (1.14.4.2-r0) (7/39) Purging hdf5-hl-cpp (1.14.4.2-r0) (8/39) Purging hdf5-hl-fortran (1.14.4.2-r0) (9/39) Purging hdf5-hl (1.14.4.2-r0) (10/39) Purging libaec-dev (1.1.3-r0) (11/39) Purging libaec (1.1.3-r0) (12/39) Purging libxml2-dev (2.12.8-r0) (13/39) Purging libxml2-utils (2.12.8-r0) (14/39) Purging libxml2 (2.12.8-r0) (15/39) Purging m4 (1.4.19-r3) (16/39) Purging samurai (1.2-r5) (17/39) Purging brotli-dev (1.1.0-r2) (18/39) Purging brotli (1.1.0-r2) (19/39) Purging c-ares-dev (1.33.1-r0) (20/39) Purging hdf5-cpp (1.14.4.2-r0) (21/39) Purging hdf5-fortran (1.14.4.2-r0) (22/39) Purging libarchive (3.7.4-r0) (23/39) Purging libbz2 (1.0.8-r6) (24/39) Purging libgfortran (14.2.0-r2) (25/39) Purging libpsl-dev (0.21.5-r2) (26/39) Purging libpsl-utils (0.21.5-r2) (27/39) Purging libuv (1.48.0-r0) (28/39) Purging nghttp2-dev (1.62.1-r0) (29/39) Purging openssl-dev (3.3.2-r0) (30/39) Purging rhash-libs (1.4.4-r0) (31/39) Purging xz-dev (5.6.2-r0) (32/39) Purging xz (5.6.2-r0) (33/39) Purging xz-libs (5.6.2-r0) (34/39) Purging zlib-dev (1.3.1-r1) (35/39) Purging zstd-dev (1.5.6-r1) (36/39) Purging zstd (1.5.6-r1) (37/39) Purging hdf5 (1.14.4.2-r0) (38/39) Purging libidn2-dev (2.3.7-r0) (39/39) Purging libsz (1.1.3-r0) Executing busybox-1.36.1-r31.trigger OK: 250 MiB in 101 packages